# List of top-scoring protein chains for T0337.t06-w0.5 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1ri7A 171 4.52e-26 a.4.5.32,d.58.4.2 97504,97505 2cg4A 152 1.95e-22 1i1gA 141 9.46e-22 a.4.5.32,d.58.4.2 65982,65983 2cfxA 144 3.35e-20 1sfxA 109 7.44e-05 a.4.5.50 105505 2csbA 519 1.19e-03 1ulyA 192 2.47e-03 2a61A 145 2.91e-03 1s3jA 155 3.15e-03 a.4.5.28 98437 1xnpA 202 7.46e-03 1mkmA 249 1.29e-02 a.4.5.33,d.110.2.2 79242,79243 2fbhA 146 1.53e-02 2g7uA 257 2.36e-02 2fbiA 142 3.73e-02 2b0lA 102 5.03e-02 1je8A 82 6.06e-02 a.4.6.2 77108 1ub9A 100 7.49e-02 a.4.5.28 99159 1q1hA 110 9.16e-02 a.4.5.41 95580 1lvaA 258 9.69e-02 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1lj9A 144 1.10e-01 a.4.5.28 78035 1o3sA 200 1.19e-01 a.4.5.4,b.82.3.2 86609,86610 1z91A 147 1.19e-01 1r22A 122 1.22e-01 a.4.5.5 104777 1hw5A 210 1.57e-01 2cgpA a.4.5.4,b.82.3.2 16098,28137 1i6xA 209 1.61e-01 a.4.5.4,b.82.3.2 83673,83674 1i5zA 209 1.76e-01 a.4.5.4,b.82.3.2 83669,83670 1g6nA 210 1.76e-01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1o3tA 200 1.77e-01 a.4.5.4,b.82.3.2 86611,86612 1cgpA 205 1.85e-01 a.4.5.4,b.82.3.2 16096,28135 1wsuA 124 2.42e-01 1b1bA 140 3.15e-01 1bi0 a.4.5.24,a.76.1.1 16215,18421 1ku9A 152 3.96e-01 a.4.5.36 77544 1lnwA 147 4.71e-01 a.4.5.28 78104 1jhfA 202 5.00e-01 a.4.5.2,b.87.1.1 63057,63058 1zljA 78 5.11e-01 1o5lA 213 5.23e-01 b.82.3.2 92506 1zlkA 95 6.09e-01 1fx7A 230 6.25e-01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 60088,60089,60090 1ruoA 209 6.39e-01 2cgpA a.4.5.4,b.82.3.2 16105,28144 1r1tA 122 6.61e-01 a.4.5.5 104769 1bia 321 6.96e-01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1a04A 215 7.19e-01 1a04A a.4.6.2,c.23.1.1 16234,31089 1utbA 315 7.85e-01 c.94.1.1 108030 1uthA 315 7.92e-01 c.94.1.1 108032 1utbB 315 8.13e-01 c.94.1.1 108031 1uthB 315 8.31e-01 c.94.1.1 108033 1zh7A 243 8.37e-01 1xd7A 145 1.13e+00 a.4.5.55 109566 1l6mA 180 1.31e+00 b.60.1.1 84531 1x89A 178 1.31e+00 1ft9A 222 1.43e+00 1ft9A a.4.5.4,b.82.3.1 16107,28131 1j5yA 187 1.83e+00 a.4.5.1,d.94.2.1 71592,71593 1lea 84 2.15e+00 1lea a.4.5.2 16085 1f5tA 121 2.19e+00 1bi0 a.4.5.24,a.76.1.1 16203,18409 1cy9A 264 2.22e+00 1ecl e.10.1.1 43236 2fuzA 377 2.24e+00 1xcvA 139 2.30e+00 1u2wA 122 2.35e+00 2bj7A 138 2.43e+00 1pk5A 248 2.45e+00 a.123.1.1 88139 1in5A 334 2.70e+00 1hqcA a.4.5.11,c.37.1.20 62599,62600 1in7A 334 2.73e+00 1hqcA a.4.5.11,c.37.1.20 62603,62604 1jhhA 202 2.84e+00 a.4.5.2,b.87.1.1 63060,63061 1in6A 334 2.91e+00 1hqcA a.4.5.11,c.37.1.20 62601,62602 1in4A 334 2.92e+00 1hqcA a.4.5.11,c.37.1.20 62597,62598 1j7kA 334 2.92e+00 1hqcA a.4.5.11,c.37.1.20 62695,62696 1dfvA 177 3.05e+00 1nglA b.60.1.1 27144 1nglA 179 3.07e+00 1nglA b.60.1.1 27146 1bw6A 56 3.36e+00 1bw6A a.4.1.7 16052 1in8A 334 3.49e+00 1hqcA a.4.5.11,c.37.1.20 62605,62606 3crd 100 4.09e+00 3crd a.77.1.3 18429 2feaA 236 4.23e+00 1yv5A 374 4.26e+00 1zw5A 355 4.35e+00 2f94F 350 4.39e+00 1lqyA 184 4.53e+00 d.167.1.1 74212 1fseA 74 4.58e+00 1fseA a.4.6.2 60000 1s7oA 113 4.87e+00 a.4.13.3 105354 1zduA 245 4.88e+00 1yokA 256 4.96e+00 1yucA 255 5.01e+00 1uz3A 102 5.02e+00 1utuA 108 5.04e+00 2ahoB 266 5.53e+00 1gtdA 85 5.61e+00 d.284.1.1 76344 1hlvA 131 5.83e+00 a.4.1.7,a.4.1.7 65854,65855 1g2hA 61 5.84e+00 1g2hA a.4.1.12 60224 1hw1A 239 6.20e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1e2xA 243 6.21e+00 1e2xA a.4.5.6,a.78.1.1 16113,18443 2ev0A 142 6.44e+00 2acjA 66 6.54e+00 2bbhA 269 6.83e+00 2fmmE 133 6.88e+00 1qbjA 81 7.56e+00 1qbjA a.4.5.19 16155 2ethA 154 7.65e+00 2dtr 226 8.85e+00 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 1ve1A 304 8.91e+00 1g3yA 226 8.97e+00 a.4.5.24,a.76.1.1,b.34.1.2 65136,65137,65138 1mk3A 178 9.09e+00 f.1.4.1 84978 1p92A 226 9.12e+00 a.4.5.24,a.76.1.1,b.34.1.2 104085,104086,104087 2tdx 226 9.15e+00 1bi0 a.4.5.24,a.76.1.1 16201,18407 1aisB 200 9.21e+00 1aisB a.74.1.2,a.74.1.2 18384,18385 1d3uB 201 9.25e+00 1aisB a.74.1.2,a.74.1.2 18386,18387 1c0wA 225 9.32e+00 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16211,18417,24455 1g3tA 226 9.96e+00 a.4.5.24,a.76.1.1,b.34.1.2 65127,65128,65129 1va9A 122 1.05e+01 2fxaA 207 1.09e+01 1pbgA 468 1.11e+01 1e70M c.1.8.4 28946 2pbg 468 1.13e+01 1e70M c.1.8.4 28948 2bbjA 354 1.14e+01 2af4C 333 1.14e+01 1h6zA 913 1.15e+01 c.1.12.2,c.8.1.1,d.142.1.5 70906,70907,70908 1yyvA 131 1.19e+01 1o0lA 188 1.20e+01 f.1.4.1 86534 2ajpA 326 1.21e+01 1fwzA 226 1.23e+01 a.4.5.24,a.76.1.1,b.34.1.2 60077,60078,60079 1xi9A 406 1.28e+01 1qgpA 77 1.28e+01 1qbjA a.4.5.19 16158 1v05A 96 1.29e+01 1p3jA 217 1.48e+01 c.37.1.1,g.41.2.1 94022,94023 6paxA 133 1.51e+01 6paxA a.4.1.5,a.4.1.5 64758,64759 1b0nA 111 1.53e+01 1b0nA a.34.1.1,a.35.1.3 17001,17064 2fv1A 377 1.55e+01 1cy2A 599 1.55e+01 1ecl e.10.1.1 43241 4pbgA 468 1.58e+01 1e70M c.1.8.4 28949 1on2A 142 1.59e+01 a.4.5.24,a.76.1.1 87103,87104 1qqsA 174 1.65e+01 1nglA b.60.1.1 27143 1whsA 255 1.67e+01 1ivyA c.69.1.5 34649 1whtA 256 1.67e+01 1ivyA c.69.1.5 34646 1bcsA 263 1.71e+01 1ivyA c.69.1.5 34647 1lhpA 312 1.75e+01 c.72.1.5 77960 3sc2A 259 1.82e+01 1ivyA c.69.1.5 34648 1pdnC 128 1.84e+01 6paxA a.4.1.5 16047 1sqsA 242 1.87e+01 c.23.5.5 98968 1j75A 67 1.88e+01 a.4.5.19 62673 1vk1A 242 1.90e+01 d.268.1.2 108634 2f8mA 244 2.02e+01 1ecl 597 2.03e+01 1ecl e.10.1.1 43238 1q90M 39 2.04e+01 f.23.25.1 96246 1iw8A 231 2.07e+01 a.111.1.1 76866 1k78A 149 2.09e+01 a.4.1.5,a.4.1.5 68255,68256 1uarA 285 2.10e+01 c.46.1.2,c.46.1.2 107762,107763 1efpA 307 2.11e+01 1efvA c.26.2.3,c.31.1.2 31635,31729 1wfjA 136 2.12e+01 1jroA 462 2.16e+01 a.56.1.1,d.15.4.2,d.87.2.1,d.145.1.3 67137,67138,67139,67140 1v6sA 390 2.19e+01 c.86.1.1 100424 1xmkA 79 2.21e+01 1d2tA 231 2.26e+01 1d2tA a.111.1.1 19052 1okrA 123 2.38e+01 a.4.5.39 93269 1ylfA 149 2.41e+01 1wi9A 72 2.46e+01 1p6rA 82 2.54e+01 a.4.5.39 94187 1n2aA 201 2.59e+01 a.45.1.1,c.47.1.5 91553,91554 1j0rA 122 2.60e+01 a.4.5.7 90745 1sj6A 101 2.71e+01 1p4xA 250 2.71e+01 a.4.5.28,a.4.5.28 87784,87785 1bm9A 122 2.72e+01 1bm9A a.4.5.7 16116 1y0uA 96 2.83e+01 1t5iA 172 2.87e+01 c.37.1.19 106450 1sd6A 123 2.98e+01 a.4.5.39 98803 1g1xB 88 2.99e+01 1a32 a.16.1.2 16393 1hqcA 324 2.99e+01 1hqcA a.4.5.11,c.37.1.20 16127,32424 1fkaO 89 3.04e+01 i.1.1.3 45858 1uwwA 191 3.07e+01 b.18.1.23 108079 1eg5A 384 3.16e+01 1ecxA c.67.1.3 34429 1sd4A 126 3.17e+01 a.4.5.39 105428 2gaiA 633 3.17e+01 2fswA 107 3.21e+01 1mhdA 132 3.23e+01 1mhdA d.164.1.1 42175 1ixsB 318 3.32e+01 a.4.5.11,c.37.1.20 76933,76934 5nul 138 3.36e+01 5nul c.23.5.1 31191 1ozjA 144 3.36e+01 d.164.1.1 93846 2c9wA 169 3.45e+01 1jgsA 138 3.49e+01 a.4.5.28 66683 3nll 138 3.53e+01 5nul c.23.5.1 31206 1vjuA 309 3.54e+01 d.248.1.1 100835 1s6lA 212 3.55e+01 1ixrC 312 3.56e+01 a.4.5.11,c.37.1.20 76930,76931 1o07A 358 3.77e+01 e.3.1.1 92390 1ybzA 91 3.96e+01 1mxmA 254 4.04e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1o58A 303 4.08e+01 c.79.1.1 92491 1r5jA 337 4.08e+01 c.77.1.5 97097 1d6mA 653 4.13e+01 1d6mA e.10.1.1 43248 3pmgA 561 4.26e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 2cohA 202 4.28e+01 1wyuA 438 4.35e+01 1dj3A 442 4.42e+01 1adeA c.37.1.10 32239 1qibA 161 4.48e+01 1ck7A d.92.1.11 40359 1abrA 251 4.55e+01 1mrj d.165.1.1 42196 1g5cA 170 4.57e+01 1g5cA c.53.2.1 60264 1axdA 209 4.70e+01 1gnwA a.45.1.1,c.47.1.5 17730,33024 1slm 255 4.76e+01 1hfc a.20.1.2,d.92.1.11 59042,59043 1i7dA 659 4.79e+01 1d6mA e.10.1.1 61886 2bszA 278 4.80e+01 2prd 174 4.89e+01 2prd b.40.5.1 25435 1byeA 213 4.95e+01 1gnwA a.45.1.1,c.47.1.5 17732,33026 1dwkA 156 4.96e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 2d7dA 661 5.00e+01 1utxA 66 5.04e+01 a.35.1.3 108034 2a6cA 83 5.05e+01 1b0aA 288 5.15e+01 1a4iA c.2.1.7,c.58.1.2 30286,33934 1zybA 232 5.26e+01 2cmd 312 5.32e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1ib6A 312 5.36e+01 c.2.1.5,d.162.1.1 62146,62147 2be4A 272 5.52e+01 1sq8A 64 5.68e+01 a.35.1.2 105888 1nr3A 122 5.74e+01 d.236.1.1 86092 1f9nA 149 5.88e+01 a.4.5.3,d.74.2.1 64990,64991 1g13A 162 6.27e+01 1g13A b.95.1.1 60194 1un2A 197 6.31e+01 c.47.1.13 99645 1mrzA 293 6.39e+01 b.43.5.1,c.26.1.3 91452,91453 4nll 138 6.39e+01 5nul c.23.5.1 31203 1fvjA 189 6.41e+01 1fvkA c.47.1.13 90349 1xo1A 291 6.54e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 2a4hA 126 6.57e+01 1y1pA 342 6.57e+01 1d8yA 605 6.62e+01 1xwl c.55.3.5,e.8.1.1 33684,42977 1klnA 605 6.63e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1kfd 605 6.68e+01 1xwl c.55.3.5,e.8.1.1 33694,42987 2kfnA 605 6.68e+01 1xwl c.55.3.5,e.8.1.1 33682,42975 1s69A 124 6.69e+01 a.1.1.1 105305 1rtxA 123 6.77e+01 a.1.1.1 97827 1t1vA 93 6.81e+01 c.47.1.14 106278 1fvx 138 6.82e+01 5nul c.23.5.1 31204 1u8bA 133 6.89e+01 1ut8A 291 7.00e+01 a.60.7.1,c.120.1.2 99908,99909 1exnA 290 7.00e+01 1exnA a.60.7.1,c.120.1.2 18088,33358 5nll 138 7.05e+01 5nul c.23.5.1 31198 1zgwA 139 7.18e+01 1j0fA 100 7.19e+01 c.47.1.14 90739 1xu1A 138 7.22e+01 1u5xA 140 7.28e+01 2fdx 138 7.34e+01 5nul c.23.5.1 31192 1shyB 551 7.40e+01 b.69.12.1,g.16.2.1 105565,105566 2ag9A 164 7.55e+01 1e8yA 966 7.64e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1cg4A 431 7.67e+01 1adeA c.37.1.10 32228 1x1rA 178 7.68e+01 2ag4A 164 7.72e+01 1wpkA 146 7.76e+01 1xiqA 157 7.79e+01 2f4iA 197 7.80e+01 1n0sA 184 7.89e+01 b.60.1.1 91526 2f06A 144 7.90e+01 1usn 165 8.03e+01 1hfc d.92.1.11 40372 2fewA 148 8.06e+01 1cue 197 8.06e+01 1cex c.69.1.30 31322 2gmqA 118 8.10e+01 1qrqA 325 8.16e+01 1qrqA c.1.7.1 28667 1b8yA 167 8.17e+01 1hfc d.92.1.11 40377 2bnmA 198 8.19e+01 1cizA 168 8.23e+01 1hfc d.92.1.11 40371 1t0vA 184 8.26e+01 1mw9X 592 8.28e+01 e.10.1.1 91480 1hd0A 75 8.30e+01 1ha1 d.58.7.1 39188 1pme 380 8.35e+01 1hcl d.144.1.7 41653 1xmaA 145 8.49e+01 1exbA 332 8.54e+01 1qrqA c.1.7.1 28666 2a79A 333 8.58e+01 1v9pA 584 8.60e+01 a.60.2.2,b.40.4.6,d.142.2.2 100544,100545,100546 1p6tA 151 8.62e+01 d.58.17.1,d.58.17.1 94188,94189 1rr7A 129 8.67e+01 a.4.1.14 105075 1a3aA 148 8.72e+01 1a3aA d.112.1.1 40917 1lvwA 295 8.75e+01 c.68.1.6 84723 1hy7A 173 8.75e+01 d.92.1.11 65957 2f2eA 146 8.84e+01 1umsA 174 8.85e+01 1hfc d.92.1.11 40368 1ixcA 294 8.87e+01 a.4.5.37,c.94.1.1 83764,83765